YWCH - BACSU - GREMLIN Contacts

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YWCH - Uncharacterized protein YwcH

UniProt:	P39606	Sequences: MVSLSILDQSPVSEGSNAETALQQTVALAQAAEDLGYKRFWVSEHHFSKRLAGSSPEVLISHIAAKTKRIRVGSGGVMLPHYSAYKVAENFRVLEGLTPGRIDLGLGRAPGGMPIASWALNDGGKRNADQYPQQIKELTMYLHDLADDKHRFPNLTAAPHISTAPDVWLLGSSGESALLAAESGAGYMFAHFINGEGGEGTVRQYKRRFKPSVLGDTPRAAVAVFVLCADTEEKAEELGAVLDFTLLAGEQGIPLEGVPSYEAVRKNTYSPYEQRRIADNRNRMIVGTKEQVKERLLALSNAYETEEIMVVTITHHFEDKLRSYRLLQEAFAD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	333 (290)
Sequences:	16568 (10677)
Seq/√Len:	627.0

ECOLI - YHBW RUTA SSUD
BACSU - YWCH YCEB YTMO YDDN YVBT SSUD YXEK MOXC
HALSA - Q9HQZ9
SULSO - Q97Y17

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
232_E	291_Q	5.436	1.00
30_Q	66_K	3.402	1.00
71_R	103_D	2.825	1.00
232_E	288_T	2.806	1.00
132_P	182_E	2.801	1.00
295_R	298_A	2.651	1.00
31_A	34_D	2.559	1.00
33_E	69_R	2.556	1.00
178_L	208_R	2.548	1.00
64_A	98_T	2.544	1.00
203_R	207_R	2.516	1.00
232_E	236_E	2.504	1.00
231_T	234_K	2.490	1.00
229_A	234_K	2.418	1.00
60_I	72_V	2.393	1.00
288_T	291_Q	2.373	1.00
136_K	183_S	2.319	1.00
177_A	204_Q	2.261	1.00
202_V	220_A	2.197	1.00
202_V	206_K	2.178	1.00
26_V	30_Q	2.162	1.00
207_R	211_P	2.154	1.00
29_A	63_I	2.150	1.00
23_Q	99_P	2.144	1.00
209_F	218_P	2.117	1.00
30_Q	34_D	2.110	1.00
204_Q	208_R	2.090	1.00
199_E	203_R	2.034	1.00
298_A	302_A	2.018	1.00
199_E	302_A	2.016	1.00
143_H	164_A	2.012	1.00
40_F	70_I	1.974	1.00
233_E	237_E	1.956	1.00
26_V	66_K	1.949	1.00
91_F	102_I	1.905	1.00
95_E	100_G	1.895	1.00
27_A	30_Q	1.878	1.00
285_I	292_V	1.864	1.00
41_W	73_G	1.860	1.00
55_S	90_N	1.828	1.00
64_A	72_V	1.820	1.00
181_A	208_R	1.820	1.00
240_A	244_F	1.801	1.00
139_T	164_A	1.777	1.00
29_A	40_F	1.761	1.00
114_P	118_W	1.757	1.00
31_A	35_L	1.737	1.00
204_Q	207_R	1.698	1.00
91_F	104_L	1.682	1.00
208_R	211_P	1.649	1.00
63_I	72_V	1.611	1.00
171_G	187_Y	1.606	1.00
200_G	203_R	1.586	1.00
290_E	294_E	1.582	1.00
136_K	140_M	1.580	1.00
178_L	211_P	1.565	1.00
291_Q	294_E	1.564	1.00
139_T	183_S	1.550	1.00
275_R	278_A	1.536	1.00
293_K	297_L	1.528	1.00
17_N	20_T	1.526	1.00
178_L	182_E	1.492	1.00
26_V	62_H	1.478	1.00
34_D	68_K	1.473	1.00
33_E	67_T	1.471	1.00
123_G	126_R	1.471	1.00
228_C	292_V	1.460	1.00
29_A	67_T	1.444	1.00
222_V	305_T	1.439	1.00
62_H	65_A	1.401	1.00
234_K	238_L	1.389	1.00
140_M	145_L	1.384	1.00
42_V	60_I	1.369	1.00
140_M	144_D	1.366	1.00
62_H	97_L	1.366	1.00
297_L	300_S	1.365	1.00
132_P	183_S	1.364	1.00
139_T	167_V	1.363	1.00
228_C	289_K	1.362	1.00
152_F	155_L	1.355	1.00
291_Q	295_R	1.349	1.00
23_Q	27_A	1.317	1.00
20_T	24_Q	1.316	1.00
55_S	58_V	1.313	1.00
82_Y	90_N	1.301	1.00
157_A	160_H	1.296	1.00
168_W	221_A	1.294	1.00
147_D	150_H	1.288	1.00
272_Y	275_R	1.285	1.00
229_A	235_A	1.280	1.00
27_A	31_A	1.279	1.00
174_G	204_Q	1.274	1.00
219_R	306_E	1.273	1.00
209_F	214_L	1.262	1.00
294_E	298_A	1.256	1.00
132_P	136_K	1.241	1.00
33_E	68_K	1.239	1.00
230_D	234_K	1.236	1.00
181_A	212_S	1.229	1.00
234_K	237_E	1.229	1.00
60_I	74_S	1.225	1.00
29_A	70_I	1.222	1.00
237_E	240_A	1.219	1.00
139_T	185_A	1.216	1.00
178_L	204_Q	1.214	1.00
73_G	103_D	1.199	1.00
227_L	238_L	1.195	1.00
95_E	162_S	1.193	1.00
94_L	102_I	1.191	1.00
168_W	186_G	1.191	1.00
87_V	134_Q	1.186	1.00
118_W	121_N	1.175	1.00
178_L	212_S	1.174	1.00
30_Q	68_K	1.153	1.00
239_G	243_D	1.136	1.00
104_L	138_L	1.132	1.00
126_R	129_D	1.128	1.00
54_S	93_V	1.128	1.00
135_I	183_S	1.125	1.00
57_E	90_N	1.123	1.00
58_V	61_S	1.122	1.00
182_E	212_S	1.122	1.00
208_R	212_S	1.119	1.00
194_N	197_G	1.115	1.00
42_V	63_I	1.101	1.00
62_H	66_K	1.099	1.00
138_L	142_L	1.095	1.00
195_G	298_A	1.095	1.00
24_Q	27_A	1.094	1.00
175_E	178_L	1.093	1.00
285_I	295_R	1.092	1.00
276_R	279_D	1.087	1.00
86_K	90_N	1.087	1.00
237_E	241_V	1.085	1.00
114_P	117_S	1.085	1.00
116_A	119_A	1.083	1.00
106_L	135_I	1.075	1.00
226_V	310_V	1.064	1.00
236_E	240_A	1.063	1.00
199_E	303_Y	1.062	1.00
272_Y	277_I	1.059	1.00
287_G	292_V	1.056	1.00
200_G	204_Q	1.040	1.00
24_Q	317_F	1.039	1.00
129_D	175_E	1.038	1.00
27_A	317_F	1.035	1.00
130_Q	133_Q	1.028	1.00
58_V	94_L	1.020	1.00
197_G	200_G	1.017	1.00
137_E	140_M	1.011	1.00
272_Y	276_R	1.007	1.00
229_A	238_L	1.007	1.00
136_K	149_K	1.001	1.00
139_T	143_H	1.000	1.00
115_I	118_W	0.999	1.00
116_A	121_N	0.994	1.00
19_E	23_Q	0.993	1.00
132_P	179_L	0.986	1.00
233_E	236_E	0.983	1.00
258_V	261_Y	0.980	1.00
126_R	130_Q	0.978	1.00
219_R	307_E	0.978	1.00
133_Q	137_E	0.974	1.00
39_R	73_G	0.969	1.00
180_A	187_Y	0.969	1.00
76_G	170_L	0.965	1.00
224_V	285_I	0.953	1.00
179_L	183_S	0.952	1.00
273_E	278_A	0.943	1.00
57_E	77_V	0.932	1.00
130_Q	134_Q	0.929	1.00
273_E	277_I	0.927	1.00
239_G	286_V	0.921	1.00
157_A	161_I	0.921	1.00
95_E	163_T	0.918	1.00
146_A	154_N	0.918	1.00
248_A	252_G	0.909	1.00
241_V	244_F	0.904	1.00
23_Q	26_V	0.902	1.00
188_M	221_A	0.900	1.00
161_I	164_A	0.896	1.00
224_V	296_L	0.895	1.00
114_P	121_N	0.895	1.00
27_A	34_D	0.894	1.00
84_A	137_E	0.888	1.00
249_G	252_G	0.887	1.00
152_F	157_A	0.885	1.00
177_A	208_R	0.884	1.00
187_Y	205_Y	0.884	1.00
260_S	263_A	0.882	1.00
61_S	65_A	0.875	1.00
294_E	297_L	0.873	1.00
209_F	212_S	0.865	1.00
134_Q	138_L	0.865	1.00
250_E	254_P	0.861	1.00
22_L	97_L	0.861	1.00
236_E	281_R	0.859	1.00
117_S	120_L	0.859	1.00
297_L	302_A	0.856	1.00
144_D	147_D	0.843	1.00
195_G	199_E	0.843	1.00
231_T	235_A	0.842	1.00
274_Q	279_D	0.837	1.00
203_R	304_E	0.834	1.00
169_L	180_A	0.832	1.00
177_A	181_A	0.828	1.00
79_L	134_Q	0.825	1.00
21_A	24_Q	0.819	1.00
76_G	107_G	0.819	1.00
249_G	253_I	0.816	1.00
115_I	121_N	0.816	1.00
275_R	279_D	0.815	1.00
209_F	215_G	0.814	1.00
169_L	176_S	0.814	1.00
39_R	307_E	0.813	1.00
240_A	243_D	0.811	1.00
206_K	220_A	0.809	1.00
274_Q	278_A	0.805	1.00
95_E	164_A	0.802	1.00
142_L	165_P	0.798	1.00
64_A	102_I	0.796	1.00
65_A	98_T	0.793	1.00
238_L	241_V	0.792	1.00
26_V	63_I	0.792	1.00
60_I	64_A	0.787	1.00
60_I	102_I	0.787	1.00
140_M	147_D	0.786	1.00
78_M	109_A	0.786	1.00
236_E	239_G	0.784	1.00
202_V	205_Y	0.775	1.00
232_E	235_A	0.770	1.00
196_E	199_E	0.768	1.00
205_Y	209_F	0.765	1.00
140_M	143_H	0.765	1.00
209_F	217_T	0.764	1.00
169_L	184_G	0.763	1.00
261_Y	264_V	0.763	1.00
158_A	161_I	0.760	1.00
115_I	119_A	0.759	1.00
132_P	175_E	0.753	1.00
103_D	168_W	0.752	1.00
24_Q	28_L	0.751	1.00
206_K	210_K	0.749	1.00
79_L	87_V	0.747	1.00
146_A	149_K	0.746	1.00
254_P	261_Y	0.745	1.00
60_I	94_L	0.745	1.00
64_A	94_L	0.744	1.00
128_A	175_E	0.743	1.00
136_K	182_E	0.743	1.00
274_Q	277_I	0.738	1.00
205_Y	218_P	0.737	1.00
23_Q	65_A	0.730	1.00
74_S	102_I	0.730	1.00
140_M	149_K	0.725	1.00
249_G	254_P	0.724	1.00
250_E	255_L	0.724	1.00
177_A	187_Y	0.724	1.00
40_F	63_I	0.722	1.00
236_E	286_V	0.720	1.00
156_T	160_H	0.718	1.00
87_V	138_L	0.717	1.00
96_G	163_T	0.717	1.00
153_P	157_A	0.715	1.00
259_P	262_E	0.714	1.00
84_A	134_Q	0.713	1.00
248_A	254_P	0.710	1.00
174_G	208_R	0.709	1.00
117_S	121_N	0.708	1.00
148_D	154_N	0.707	1.00
182_E	208_R	0.707	1.00
22_L	62_H	0.704	1.00
91_F	142_L	0.702	1.00
76_G	87_V	0.701	1.00
137_E	152_F	0.700	1.00
273_E	276_R	0.698	1.00
272_Y	279_D	0.693	1.00
71_R	166_D	0.693	1.00
257_G	260_S	0.692	1.00
221_A	307_E	0.691	1.00
146_A	150_H	0.686	1.00
259_P	263_A	0.686	1.00
41_W	75_G	0.685	1.00
38_K	69_R	0.684	1.00
46_H	89_E	0.684	1.00
83_S	86_K	0.681	1.00
26_V	65_A	0.680	1.00
189_F	201_T	0.679	1.00
152_F	160_H	0.678	1.00
241_V	245_T	0.677	1.00
178_L	207_R	0.675	1.00
154_N	157_A	0.675	1.00
174_G	178_L	0.674	1.00
125_K	175_E	0.671	1.00
141_Y	147_D	0.670	1.00
202_V	303_Y	0.670	1.00
206_K	209_F	0.669	1.00
108_R	127_N	0.665	1.00
137_E	149_K	0.665	1.00
42_V	59_L	0.665	1.00
169_L	179_L	0.661	1.00
171_G	176_S	0.661	1.00
82_Y	86_K	0.661	1.00
136_K	139_T	0.660	1.00
109_A	116_A	0.658	1.00
226_V	285_I	0.658	1.00
212_S	215_G	0.657	1.00
108_R	131_Y	0.657	1.00
57_E	91_F	0.652	1.00
209_F	216_D	0.651	1.00
38_K	71_R	0.651	1.00
295_R	299_L	0.651	1.00
44_E	82_Y	0.650	1.00
250_E	253_I	0.650	1.00
152_F	158_A	0.650	1.00
195_G	302_A	0.650	1.00
61_S	94_L	0.647	1.00
220_A	305_T	0.647	1.00
67_T	101_R	0.647	1.00
73_G	168_W	0.646	1.00
206_K	306_E	0.641	1.00
290_E	293_K	0.639	1.00
300_S	305_T	0.638	1.00
26_V	29_A	0.636	1.00
152_F	161_I	0.635	1.00
223_A	309_M	0.635	1.00
32_A	70_I	0.630	1.00
18_A	21_A	0.630	1.00
251_Q	254_P	0.629	1.00
106_L	167_V	0.626	1.00
133_Q	136_K	0.623	1.00
72_V	98_T	0.622	1.00
39_R	309_M	0.621	1.00
114_P	119_A	0.620	1.00
22_L	26_V	0.618	1.00
177_A	205_Y	0.617	1.00
251_Q	255_L	0.611	1.00
175_E	179_L	0.609	1.00
283_R	295_R	0.609	1.00
122_D	130_Q	0.609	1.00
153_P	156_T	0.605	1.00
59_L	93_V	0.604	1.00
61_S	98_T	0.602	1.00
116_A	120_L	0.602	1.00
203_R	206_K	0.599	1.00
79_L	106_L	0.598	1.00
254_P	257_G	0.598	1.00
67_T	70_I	0.596	1.00
95_E	98_T	0.595	1.00
217_T	306_E	0.595	1.00
82_Y	87_V	0.595	1.00
181_A	209_F	0.592	1.00
254_P	260_S	0.591	1.00
198_G	201_T	0.589	1.00
56_P	74_S	0.587	1.00
206_K	304_E	0.587	1.00
115_I	120_L	0.585	1.00
311_V	315_H	0.584	1.00
148_D	153_P	0.582	1.00
33_E	70_I	0.581	1.00
231_T	237_E	0.581	1.00
58_V	90_N	0.579	1.00
248_A	251_Q	0.576	1.00
155_L	158_A	0.573	1.00
182_E	211_P	0.572	1.00
137_E	147_D	0.572	1.00
230_D	289_K	0.572	1.00
85_Y	141_Y	0.570	1.00
228_C	288_T	0.570	1.00
88_A	142_L	0.568	1.00
263_A	271_P	0.568	1.00
201_T	204_Q	0.566	1.00
235_A	239_G	0.566	1.00
296_L	310_V	0.565	1.00
296_L	308_I	0.565	1.00
244_F	248_A	0.564	1.00
27_A	318_E	0.562	1.00
105_G	170_L	0.559	1.00
289_K	293_K	0.559	1.00
23_Q	68_K	0.558	1.00
84_A	138_L	0.558	1.00
62_H	98_T	0.558	1.00
252_G	261_Y	0.557	1.00
20_T	23_Q	0.556	1.00
207_R	210_K	0.556	1.00
75_G	188_M	0.555	1.00
92_R	142_L	0.554	1.00
85_Y	155_L	0.550	1.00
103_D	307_E	0.549	1.00
257_G	261_Y	0.548	1.00
202_V	305_T	0.548	1.00
229_A	232_E	0.547	1.00
257_G	262_E	0.544	0.99
248_A	253_I	0.542	0.99
95_E	161_I	0.541	0.99
60_I	98_T	0.541	0.99
166_D	219_R	0.540	0.99
252_G	255_L	0.540	0.99
206_K	216_D	0.538	0.99
118_W	153_P	0.537	0.99
98_T	102_I	0.536	0.99
95_E	165_P	0.536	0.99
168_W	307_E	0.532	0.99
135_I	169_L	0.530	0.99
156_T	161_I	0.530	0.99
186_G	219_R	0.529	0.99
179_L	182_E	0.527	0.99
106_L	138_L	0.526	0.99
195_G	303_Y	0.525	0.99
206_K	217_T	0.523	0.99
215_G	218_P	0.522	0.99
210_K	213_V	0.522	0.99
172_S	191_H	0.521	0.99
226_V	292_V	0.520	0.99
34_D	69_R	0.520	0.99
292_V	295_R	0.516	0.99
222_V	299_L	0.516	0.99
58_V	93_V	0.515	0.99
135_I	139_T	0.514	0.99
227_L	239_G	0.513	0.99
223_A	311_V	0.512	0.99
58_V	62_H	0.511	0.99
61_S	72_V	0.509	0.99
58_V	97_L	0.508	0.99
25_T	28_L	0.508	0.99
137_E	141_Y	0.507	0.99
94_L	98_T	0.505	0.99
205_Y	220_A	0.504	0.99
299_L	303_Y	0.504	0.99
164_A	185_A	0.504	0.99
224_V	308_I	0.503	0.99
250_E	257_G	0.502	0.99
77_V	87_V	0.501	0.99
196_E	200_G	0.500	0.99
205_Y	208_R	0.500	0.99

Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

HHsearch Results:

Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.

PDB	Chains	Cov	%	HHΔ
1lucA	1	0.9369	100	0.211	Contact Map
4us5A	3	0.955	100	0.215	Contact Map
2wgkA	2	0.985	100	0.215	Contact Map
1lucB	1	0.9369	100	0.217	Contact Map
2i7gA	2	0.961	100	0.236	Contact Map
1ezwA	3	0.9369	100	0.254	Contact Map
1f07A	3	0.9279	100	0.255	Contact Map
1z69A	4	0.9339	100	0.256	Contact Map
3raoA	2	0.961	100	0.257	Contact Map
1rhcA	2	0.9309	100	0.259	Contact Map

Sequence Conservation (Image Generated using WebLogo v3)

Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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